def create_db(filename, nrows):
class Record(tables.IsDescription):
col1 = tables.Int32Col()
col2 = tables.Int32Col()
col3 = tables.Float64Col()
col4 = tables.Float64Col()
con = open_db(filename, remove=1)
table = con.createTable(con.root, 'table', Record,
filters=filters, expectedrows=nrows)
table.indexFilters = filters
step = 1000*100
scale = 0.1
t1=time()
j = 0
for i in xrange(0, nrows, step):
stop = (j+1)*step
if stop > nrows:
stop = nrows
arr_f8 = numarray.arange(i, stop, type=numarray.Float64)
arr_i4 = numarray.arange(i, stop, type=numarray.Int32)
if userandom:
arr_f8 += random_array.normal(0, stop*scale, shape=[stop-i])
arr_i4 = numarray.array(arr_f8, type=numarray.Int32)
recarr = records.fromarrays([arr_i4, arr_i4, arr_f8, arr_f8])
table.append(recarr)
j += 1
table.flush()
ctime = time()-t1
if verbose:
print "insert time:", round(ctime, 5)
print "Krows/s:", round((nrows/1000.)/ctime, 5)
index_db(table)
close_db(con)
def create_db(filename, nrows):
class Record(tables.IsDescription):
col1 = tables.Int32Col()
col2 = tables.Int32Col()
col3 = tables.Float64Col()
col4 = tables.Float64Col()
con = open_db(filename, remove=1)
table = con.create_table(con.root, 'table', Record,
filters=filters, expectedrows=nrows)
table.indexFilters = filters
step = 1000*100
scale = 0.1
t1=time()
j = 0
for i in xrange(0, nrows, step):
stop = (j+1)*step
if stop > nrows:
stop = nrows
arr_f8 = numarray.arange(i, stop, type=numarray.Float64)
arr_i4 = numarray.arange(i, stop, type=numarray.Int32)
if userandom:
arr_f8 += random_array.normal(0, stop*scale, shape=[stop-i])
arr_i4 = numarray.array(arr_f8, type=numarray.Int32)
recarr = records.fromarrays([arr_i4, arr_i4, arr_f8, arr_f8])
table.append(recarr)
j += 1
table.flush()
ctime = time()-t1
if verbose:
print "insert time:", round(ctime, 5)
print "Krows/s:", round((nrows/1000.)/ctime, 5)
index_db(table)
close_db(con)
def testMarginalise(self):
def factorial(n):
if n==1:return 1
return factorial(n - 1) * n
var = set('c')
b = self.a.Marginalise(var)
var2 = set(['c','a'])
c = self.a.Marginalise(var2)
d = DiscretePotential(['b','c'], [3,4], na.arange(12))
# extended test
a = DiscretePotential('a b c d e f'.split(), [2,3,4,5,6,7], \
na.arange(factorial(7)))
aa = a.Marginalise('c f a'.split())
assert(b.names == self.a.names - var and \
b[0,1] == na.sum(self.a[0,1]) and \
c.names == self.a.names - var2 and \
na.alltrue(c.cpt.flat == na.sum(na.sum(self.a.cpt,axis=2), axis=0)) and
aa.shape == (3,5,6) and \
aa.names_list == 'b d e'.split() and \
aa[2,4,3] == na.sum(a[:,2,:,4,3,:].flat)), \
" Marginalisation doesn't work"
def plotStar(star, time='orbit', color='k', alpha=1.0):
# Choices for time are
# 'orbit' = plot the whole orbit
# 'obs' = duration of observation
# 'extend' = duration of observation plus out to 2017.5
orb = star.orbit
# Determine time steps
x = star.getArrayAllEpochs('x')
y = star.getArrayAllEpochs('y')
if (time == 'orbit'):
t = na.arange(orb.t0 + 0.01,
orb.t0 + orb.p + 0.11,
orb.p / 200.0,
type=na.Float)
if (time == 'obs'):
idx = (na.where(x != -1000))[0]
t = na.arange(math.floor(star.years[idx[0]]),
math.ceil(star.years[idx[-1]]),
0.1,
type=na.Float)
if (time == 'extend'):
idx = (na.where(x != -1000))[0]
t = na.arange(math.floor(star.years[idx[0]]),
2017.5,
0.1,
type=na.Float)
(r, v, a) = orb.kep2xyz(t, mass=mass, dist=dist)
pp = pylab.plot(r[:, 0], r[:, 1], color=color, alpha=alpha)
# To plot no line and just the data points:
#pp = pylab.plot([], [],color=color)
##
## Now plot the actual data points
##
# Load from points files
if yrlyPts:
# Just take the points from 'r' array spaced about a year apart
roundT = array([int(round(t[qq])) for qq in range(len(t))])
firstT = roundT[0]
tPts = [
roundT.searchsorted(firstT + zz + 1)
for zz in range(roundT[-1] - firstT)
]
c = pylab.scatter(r[tPts, 0],
r[tPts, 1],
20.0,
color,
marker='o',
faceted=False)
else:
# Get the actual data
c = pylab.scatter(x, y, 20.0, color, marker='o', faceted=False)
c.set_alpha(alpha)
return pp
def drawmeridians(self,ax,meridians,color='k',linewidth=1., \
linestyle='--',dashes=[1,1]):
"""
draw meridians (longitude lines).
ax - current axis instance.
meridians - list containing longitude values to draw (in degrees).
color - color to draw meridians (default black).
linewidth - line width for meridians (default 1.)
linestyle - line style for meridians (default '--', i.e. dashed).
dashes - dash pattern for meridians (default [1,1], i.e. 1 pixel on,
1 pixel off).
"""
if self.projection not in ['merc','cyl']:
lats = N.arange(-80,81).astype('f')
else:
lats = N.arange(-90,91).astype('f')
xdelta = 0.1*(self.xmax-self.xmin)
ydelta = 0.1*(self.ymax-self.ymin)
for merid in meridians:
lons = merid*N.ones(len(lats),'f')
x,y = self(lons,lats)
# remove points outside domain.
testx = N.logical_and(x>=self.xmin-xdelta,x<=self.xmax+xdelta)
x = N.compress(testx, x)
y = N.compress(testx, y)
testy = N.logical_and(y>=self.ymin-ydelta,y<=self.ymax+ydelta)
x = N.compress(testy, x)
y = N.compress(testy, y)
if len(x) > 1 and len(y) > 1:
# split into separate line segments if necessary.
# (not necessary for mercator or cylindrical).
xd = (x[1:]-x[0:-1])**2
yd = (y[1:]-y[0:-1])**2
dist = N.sqrt(xd+yd)
split = dist > 500000.
if N.sum(split) and self.projection not in ['merc','cyl']:
ind = (N.compress(split,MLab.squeeze(split*N.indices(xd.shape)))+1).tolist()
xl = []
yl = []
iprev = 0
ind.append(len(xd))
for i in ind:
xl.append(x[iprev:i])
yl.append(y[iprev:i])
iprev = i
else:
xl = [x]
yl = [y]
# draw each line segment.
for x,y in zip(xl,yl):
# skip if only a point.
if len(x) > 1 and len(y) > 1:
l = Line2D(x,y,linewidth=linewidth,linestyle=linestyle)
l.set_color(color)
l.set_dashes(dashes)
ax.add_line(l)
def mask(clus_id, line_s):
imagefile = c.imagefile
sex_cata = c.sex_cata
threshold = c.threshold
thresh_area = c.thresh_area
size = c.size
mask_reg = c.mask_reg
x = n.reshape(n.arange(size*size),(size,size)) % size
x = x.astype(n.Float32)
y = n.reshape(n.arange(size*size),(size,size)) / size
y = y.astype(n.Float32)
values = line_s.split()
mask_file = 'mask_' + str(imagefile)[:6] + '_' + str(clus_id) + '.fits'
xcntr_o = float(values[1]) #x center of the object
ycntr_o = float(values[2]) #y center of the object
xcntr = size / 2.0 + 1.0 + xcntr_o - int(xcntr_o)
ycntr = size / 2.0 + 1.0 + ycntr_o - int(ycntr_o)
mag = float(values[7]) #Magnitude
radius = float(values[9]) #Half light radius
mag_zero = c.mag_zero #magnitude zero point
sky = float(values[10]) #sky
pos_ang = float(values[11]) - 90.0 #position angle
axis_rat = 1.0 / float(values[12]) #axis ration b/a
major_axis = float(values[14]) #major axis of the object
z = n.zeros((size,size))
for line_j in open(sex_cata,'r'):
try:
values = line_j.split()
xcntr_n = float(values[1]) #x center of the neighbour
ycntr_n = float(values[2]) #y center of the neighbour
mag = float(values[7]) #Magnitude
radius = float(values[9]) #Half light radius
sky = float(values[10]) #sky
pos_ang = float(values[11]) - 90.0 #position angle
axis_rat = 1.0/float(values[12]) #axis ration b/a
area = float(values[13])
maj_axis = float(values[14])#major axis of neighbour
if(abs(xcntr_n - xcntr_o) < size/2.0 and abs(ycntr_n - ycntr_o) \
< size/2.0 and area < thresh_area):
if(abs(xcntr_n - xcntr_o) >= major_axis * threshold or \
abs(ycntr_n - ycntr_o) >= major_axis * threshold):
if((xcntr_o - xcntr_n) < 0):
xn = xcntr + abs(xcntr_n - xcntr_o)
if((ycntr_o - ycntr_n) < 0):
yn = ycntr + abs(ycntr_n - ycntr_o)
if((xcntr_o - xcntr_n) > 0):
xn = xcntr - (xcntr_o - xcntr_n)
if((ycntr_o - ycntr_n) > 0):
yn = ycntr - (ycntr_o - ycntr_n)
tx = x - xn + 0.5
ty = y - yn + 0.5
R = n.sqrt(tx**2.0 + ty**2.0)
z[n.where(R<=mask_reg*maj_axis)] = 1
except:
pass
hdu = pyfits.PrimaryHDU(z.astype(n.Float32))
hdu.writeto(mask_file)
def draw_hour(self):
months = self.get_month_range()
elem = self.element_w.getvalue()
Busy.Manager.busy()
self.update_idletasks()
g = self.graphics['hour']
# clear display
g['ax'].cla()
# title
if len(months) == 1:
title = '%s %s %s (%d-%d)' % ((self.id_, \
self.Element.get(elem, ''), self.Month[months[0]]) + \
tuple(self.data['years']))
else:
title = '%s %s %s-%s (%d-%d)' % ((self.id_, \
self.Element.get(elem, ''), self.Month[months[0]], \
self.Month[months[-1]]) + tuple(self.data['years']))
g['ax'].set_title(title)
cell_text = []
col_labels = ['%02d' % x for x in range(24)]
xvals = na.arange(24) + 0.2
# the bottom values for stacked bar chart
yoff = na.zeros(len(col_labels), na.Float32)
num_cat = len(ClimLib.FlightCats)
bar = [None]*num_cat
widths = [0.6]*24
# stacked bars
g['ax'].xaxis.set_major_locator(multipleLocator)
# sum over selected range of months and wind directions
tmp = na.sum(na.sum(na.take(self.data[elem], months, 0), 0), 1)
# sum over all categories
total = na.sum(tmp, -1)
for row in range(num_cat):
yvals = 100.0*tmp[:,row]/total
bar[row] = g['ax'].bar(xvals, yvals, widths, bottom=yoff,
color=self.colors[num_cat-row-1])
yoff += yvals
cell_row = ['%.0f' % yvals[n] for n in range(24)]
cell_text.append(cell_row)
cell_text.reverse()
g['ax'].table(cellText=cell_text, rowLabels=self.RowLabels,
rowColours=self.colors, colLabels=col_labels,
loc='bottom')
# legend
legend_bars = [x[0] for x in bar]
legend_bars.reverse()
g['ax'].legend(legend_bars, self.RowLabels)
# axes
g['ax'].set_ylabel('Percent occurrence')
g['ax'].set_xticks([])
ymax, delta = self.set_yticks(elem, 'hour')
g['ax'].set_yticks(na.arange(0, ymax, delta))
g['ax'].grid(True)
g['canvas'].draw()
Busy.Manager.notbusy()
def ap_sky(xc,yc,rr,dr):
data=[]
left=max(0,int(xc-rr-dr-5))
right=min(int(xc+rr+dr+5),nx)
bottom=max(0,int(yc-rr-dr-5))
top=min(int(yc+rr+dr+5),ny)
for x in numarray.arange(left,right,1):
for y in numarray.arange(bottom,top,1):
if ((x-xc)**2+(y-yc)**2)**0.5 > rr and ((x-xc)**2+(y-yc)**2)**0.5 <= rr+dr:
if str(pix[y-1][x-1]) != 'nan': data.append(pix[y-1][x-1])
return xits(data,3.)
def _bench():
"""time a 10**6 element median"""
import time
a = num.arange(10**6, shape=(1000, 1000))
arrays = [a * 2, a * 64, a * 16, a * 8]
t0 = time.clock()
median(arrays)
print "maskless:", time.clock() - t0
a = num.arange(10**6, shape=(1000, 1000))
arrays = [a * 2, a * 64, a * 16, a * 8]
t0 = time.clock()
median(arrays, badmasks=num.zeros((1000, 1000), type=num.Bool))
print "masked:", time.clock() - t0
def plotold():
xmin=2.2
xmax=3.2
ymin=-2.5
ymax=-.5
psplotinit('fSsigma3Gyr.ps')
ppgplot.pgbox("",0.0,0,"",0.0,0)
ppgplot.pgenv(xmin,xmax,ymin,ymax,0,30)
ppgplot.pglab("\gs (km/s)",'fS(10\u11\d:10\u13\d)',"")
ppgplot.pgsci(1)
ppgplot.pgline(sigma,frac)
ppgplot.pgsls(2)
ppgplot.pgsci(2)
ppgplot.pgline(sigma08,frac08)
ppgplot.pgsls(1)
ppgplot.pgsci(1)
ppgplot.pgend()
xmin=2.2
xmax=3.2
ymin=11.
ymax=14.2
psplotinit('maccretsigma3Gyr.ps')
ppgplot.pgbox("",0.0,0,"",0.0,0)
ppgplot.pgenv(xmin,xmax,ymin,ymax,0,30)
ppgplot.pglab("\gs (km/s)",'M\dacc\u (M\d\(2281)\u)',"")
ppgplot.pgsci(1)
ppgplot.pgline(sigma,maccret)
ppgplot.pgsls(2)
ppgplot.pgsci(2)
ppgplot.pgline(sigma08,maccret08)
ppgplot.pgsls(1)
ppgplot.pgsci(1)
mylines=N.arange(-20.,20.,.4)
mylineswidth=3
ppgplot.pgsls(4)
ppgplot.pgslw(mylineswidth)
x=N.arange(0.,5.,1.)
lines=mylines
for y0 in lines:
y=3*x +y0
ppgplot.pgline(x,y)
ppgplot.pgsls(1)
ppgplot.pgend()
os.system('cp maccretsigma.ps /Users/rfinn/SDSS/paper/.')
os.system('cp fSsigma.ps /Users/rfinn/SDSS/paper/.')
def _bench():
"""time a 10**6 element median"""
import time
a = num.arange(10**6, shape=(1000, 1000))
arrays = [a*2, a*64, a*16, a*8]
t0 = time.clock()
median(arrays)
print "maskless:", time.clock()-t0
a = num.arange(10**6, shape=(1000, 1000))
arrays = [a*2, a*64, a*16, a*8]
t0 = time.clock()
median(arrays, badmasks=num.zeros((1000,1000), type=num.Bool))
print "masked:", time.clock()-t0
def contour(x, y, xmin, xmax, ymin, ymax):
ncontbin = 20.
dx = float(abs((xmax - xmin) / ncontbin))
dy = float(abs((ymax - ymin) / ncontbin))
xcontour = N.arange(xmin, (xmax), dx)
ycontour = N.arange(ymin, (ymax), dy)
A = N.zeros((int(ncontbin), int(ncontbin)), 'f')
xbinnumb = N.array(len(x), 'f')
ybinnumb = N.array(len(x), 'f')
x1 = N.compress((x >= xmin) & (x <= xmax) & (y >= ymin) & (y <= ymax), x)
y1 = N.compress((x >= xmin) & (x <= xmax) & (y >= ymin) & (y <= ymax), y)
x = x1
y = y1
xbinnumb = ((x - xmin) * ncontbin / (xmax - xmin)
) #calculate x bin number for each point
ybinnumb = ((y - ymin) * ncontbin / (ymax - ymin)
) #calculate x bin number for each point
binID = zip(xbinnumb, ybinnumb)
Amax = 0
for (i1, j1) in binID:
i = int(i1)
j = int(j1)
if i > (ncontbin - 1):
continue
if j > (ncontbin - 1):
continue
#print i,j,A
A[j,
i] = A[j,
i] + 1 #have to switch i,j in A[] to make contours look right
#pylab.figure()
#print A
for i in range(int(ncontbin)):
for j in range(int(ncontbin)):
if A[j, i] > Amax:
Amax = A[j, i]
#Amax=max(max(A))
print "max of A = ", Amax
V = N.array([.025, .1, .25, .5, .75, .95], 'f')
V = V * Amax
con = pylab.contour((xcontour + dx), (ycontour),
A,
V,
alpha=5.,
colors='r',
linewidth=5.,
hold='on')
def fill_arrays(start, stop):
col_i = numarray.arange(start, stop, type=numarray.Int32)
if userandom:
col_j = random_array.uniform(0, nrows, shape=[stop-start])
else:
col_j = numarray.array(col_i, type=numarray.Float64)
return col_i, col_j
def horizontalhist(x, xmin, xmax, nbin): #give bins for binning
#nbin=len(bins)
xbin = N.zeros(nbin, 'f')
ybin = N.zeros(nbin, 'f')
ybinerr = N.zeros(nbin, 'f')
dbin = (xmax - xmin) / (1. * nbin)
bins = N.arange(xmin, (xmax + dbin), dbin)
x = N.take(x, N.argsort(x))
xmin = min(bins)
xmax = max(bins)
xbinnumb = ((x - xmin) * nbin / (xmax - xmin)
) #calculate x bin number for each point
#print "from within horizontal hist"
#print "bins = ",bins
for i in range(len(xbin) - 1):
xmin = bins[i]
xmax = bins[i + 1]
xbin[i] = xmin
yb = 0.
for j in range(len(x)):
if (x[j] > xmin) & (x[j] <= xmax):
yb = yb + 1.
ybin[i] = yb
ybinerr[i] = N.sqrt(yb)
#print i,len(xbin),xbin[i],xmin,xmax,ybin[i],bins[i]
xbin[(len(xbin) - 1)] = xbin[(len(xbin) - 2)] + dbin
#xbin=bins
#print "from w/in horizontal hist, ybin = ",ybin
return xbin, ybin, ybinerr
class EffectiveAreaBins(Bins):
"""
subclass of Bins for finer binning of effective area
"""
logemin = Bins.logemin
logemax = Bins.logemax
ebreak = 4.25
ebinfactor = 4
ebinhigh = 2
logedelta = Bins.logedelta
# generate list with different
anglebinfactor=4 # bins multiplier
angle_bin_edges = num.arange(Bins.angle_bins*anglebinfactor+1)*Bins.cthdelta/anglebinfactor+Bins.cthmin
@classmethod
def set_energy_bins(cls,logemin=None,logemax=None):
if logemin is None: logemin = cls.logemin
if logemax is None: logemax = cls.logemax
cls.energy_bin_edges = []
x = logemin
factor = cls.ebinfactor
while x<logemax+0.01:
if x>= cls.ebreak: factor = cls.ebinhigh
cls.energy_bin_edges.append(x)
x += cls.logedelta/factor
print 'Energy Bins ', cls.energy_bin_edges
def binitbins(xmin, xmax, nbin, x, y): #use equally spaced bins
dx = float((xmax - xmin) / (nbin))
xbin = N.arange(xmin, (xmax), dx) + dx / 2.
#print "within binitbins"
#print "xbin = ",xbin
#print "dx = ",dx
#print "xmax = ",xmax
#print "xmin = ",xmin
ybin = N.zeros(len(xbin), 'd')
ybinerr = N.zeros(len(xbin), 'd')
xbinnumb = N.array(len(x), 'd')
x1 = N.compress((x >= xmin) & (x <= xmax), x)
y1 = N.compress((x >= xmin) & (x <= xmax), y)
x = x1
y = y1
xbinnumb = ((x - xmin) * nbin / (xmax - xmin)
) #calculate x bin number for each point
j = -1
for i in range(len(xbin)):
ydata = N.compress(abs(xbinnumb - float(i)) < .5, y)
try:
ybin[i] = N.average(ydata)
#ybin[i]=pylab.median(ydata)
ybinerr[i] = pylab.std(ydata) / N.sqrt(float(len(ydata)))
except ZeroDivisionError:
ybin[i] = 0.
ybinerr[i] = 0.
return xbin, ybin, ybinerr
def testMeshgrid_DenseFromMixedArrayTypes(self):
# Other combination of arrays
#print 'testing Meshgrid with mixed array implementations'
y = N.arange(4)
z = N.arange(3)
import Numeric
x = Numeric.arange(10)
X, Y, Z = N.meshgrid(x, y, z, sparse=False)
if not N.rank(X) == 3:
raise AssertionError(
"Meshgrid failed with arraytype mix of Numeric and %s"\
%N.basic_NumPy)
import numarray
x = numarray.arange(10)
X, Y, Z = N.meshgrid(x, y, z, sparse=False)
if not N.rank(X) == 3:
raise AssertionError(
"Meshgrid failed with arraytype mix of numarray and %s"\
%N.basic_NumPy)
import numpy
x = numpy.arange(10)
X, Y, Z = N.meshgrid(x, y, z, sparse=False)
#assert N.rank(X) == 3
if not N.rank(X) == 3:
raise AssertionError(
"Meshgrid failed with arraytype mix of numpy and %s"\
%N.basic_NumPy)
def dLold(z, h):
zstep = 10000
dz = z / (1. * zstep)
c = 3. * 10**5
H0 = 100. * h
t = 0
s = 0
tH = 9.78 * h
zsteps = N.arange(0., z + dz, dz)
#for i in range(zstep+1):
for zi in zsteps:
#zi=dz*(i-1)
t = t + dz / E(zi) / (1 + zi)
s = s + dz / E(zi)
DA = c / H0 / (1 + z) * s #(kpc/arcsec)
DA = DA * 1000. / 206264
DL = c / H0 * (1 + z) * s #(Mpc/h)
t = t * tH #lookbackt Gyr
#print "DA = ",DA
#print "DL = ",DL
#print "lookback t = ",t
#distmod=5*log10(DL*1.d6/10)
# print "Distance Modulus = ",distmod
return DL
def cumulative(input):
#print "max x = ",max(input)
x = N.sort(input)
#print "max x = ",max(x)
n = len(input)
y = N.arange(0., 1., (1. / float(n)))
return x, y
def fill_arrays(start, stop):
col_i = numarray.arange(start, stop, type=numarray.Int32)
if userandom:
col_j = random_array.uniform(0, nrows, shape=[stop - start])
else:
col_j = numarray.array(col_i, type=numarray.Float64)
return col_i, col_j
def __init__(self, name, naxis=1, crval=0, cdelt=1, ctype="none", crpix=1):
if (type(name) == type(" ")):
#
# These values are being set by hand,
#
self.name = name
self.crval = crval
self.cdelt = cdelt
self.naxis = naxis
self.ctype = '%s' % ctype
self.crpix = crpix
else:
#
# Assume this is a primary header and grab the keyword data,
# but check anyways
#
if (name.__doc__ != "FITS header class."):
print "This is not a FITS header."
return
axis = "%s" % naxis
self.name = keywordVal(name, "CTYPE" + axis, "axis %s" % naxis)
self.crval = keywordVal(name, "CRVAL" + axis, 0)
self.cdelt = keywordVal(name, "CDELT" + axis, 1)
self.naxis = keywordVal(name, "NAXIS" + axis)
self.ctype = self.name
self.crpix = keywordVal(name, "CRPIX" + axis, 1)
self.array = (
(numarray.arange(self.naxis) + 1 - self.crpix) * self.cdelt +
self.crval)
def createFileArr(filename, ngroups, ntables, nrows):
# First, create the groups
# Open a file in "w"rite mode
fileh = openFile(filename, mode="w", title="PyTables Stress Test")
for k in range(ngroups):
# Create the group
group = fileh.createGroup("/", 'group%04d' % k, "Group %d" % k)
fileh.close()
# Now, create the arrays
rowswritten = 0
arr = numarray.arange(nrows)
for k in range(ngroups):
fileh = openFile(filename, mode="a", rootUEP='group%04d' % k)
# Get the group
group = fileh.root
for j in range(ntables):
# Create the array
group = fileh.createArray("/", 'array%04d' % j, arr,
"Array %d" % j)
fileh.close()
return (ngroups * ntables * nrows, 4)
def __xmlEndTagFound(self, in_name):
if in_name == "adcdata":
# ADC_Result
if self.__filetype == ResultReader.ADCDATA_TYPE:
if self.try_base64:
tmp_string=base64.standard_b64decode(self.adc_result_trailing_chars)
self.adc_result_trailing_chars=""
tmp=numarray.fromstring(tmp_string, numarray.Int16,(len(tmp_string)/2))
del tmp_string
self.result.x[self.adc_result_sample_counter:]=(numarray.arange(tmp.size()/2)+self.adc_result_sample_counter)/self.result.get_sampling_rate()
self.result.y[0][self.adc_result_sample_counter:]=tmp[::2]
self.result.y[1][self.adc_result_sample_counter:]=tmp[1::2]
self.adc_result_sample_counter+=tmp.size()/2
else:
if self.adc_result_trailing_chars!="":
self.__xmlCharacterDataFound(" ")
return
elif in_name == "result":
pass
# Error_Result
elif self.__filetype == ResultReader.ERROR_TYPE:
pass
# Temp_Result
elif self.__filetype == ResultReader.TEMP_TYPE:
pass
# Config_Result
elif self.__filetype == ResultReader.CONFIG_TYPE:
pass
def testMeshgrid_DenseFromMixedArrayTypes(self):
# Other combination of arrays
# print 'testing Meshgrid with mixed array implementations'
y = N.arange(4)
z = N.arange(3)
import Numeric
x = Numeric.arange(10)
X, Y, Z = N.meshgrid(x, y, z, sparse=False)
if not N.ndim(X) == 3:
raise AssertionError(
"Meshgrid failed with arraytype mix of Numeric and %s" %
N.basic_NumPy)
import numarray
x = numarray.arange(10)
X, Y, Z = N.meshgrid(x, y, z, sparse=False)
if not N.ndim(X) == 3:
raise AssertionError(
"Meshgrid failed with arraytype mix of numarray and %s" %
N.basic_NumPy)
import numpy
x = numpy.arange(10)
X, Y, Z = N.meshgrid(x, y, z, sparse=False)
#assert N.ndim(X) == 3
if not N.ndim(X) == 3:
raise AssertionError(
"Meshgrid failed with arraytype mix of numpy and %s" %
N.basic_NumPy)
def main():
window = gtk.Window(gtk.WINDOW_TOPLEVEL)
window.set_name ("Test Input")
window.connect("destroy", lambda w: gtk.main_quit())
vbox = gtk.VBox(False, 0)
window.add(vbox)
vbox.show()
p = grafity.Project()
w = p.new(grafity.Worksheet, 'test')
w.a = numarray.arange(1000)
w.b = [2,4,5, 5.5]
w.c = [3,2,1,3.3]
w.d = 2*w.a
w.e = w.b * w.c
sheet = Sheet(w)
vbox.pack_start(sheet, True, True, 0)
# button = gtk.Button("Quit")
# vbox.pack_start(button, False, False, 0)
# button.connect_object("clicked", lambda w: w.destroy(), window)
# button.show()
window.show()
gtk.main()
return 0
def verticalhist(y, ymin, ymax, nbin): #give bins for binning
#nbin=len(bins)
xbin = N.zeros(nbin, 'f')
ybin = N.zeros(nbin, 'f')
ybinerr = N.zeros(nbin, 'f')
dbin = (ymax - ymin) / (1. * nbin)
bins = N.arange(ymin, (ymax + dbin), dbin)
y = N.take(y, N.argsort(y))
xmin = min(bins)
xmax = max(bins)
xbinnumb = ((y - xmin) * nbin / (xmax - xmin)
) #calculate x bin number for each point
for i in range(len(xbin) - 1):
xmin = bins[i]
xmax = bins[i + 1]
yb = 0.
for j in range(len(y)):
if y[j] > xmin:
yb = yb + 1.
if y[j] > xmax:
ybin[i] = yb
ybinerr[i] = N.sqrt(yb)
#xbin[i]=0.5*(xmin+xmax)
xbin[i] = xmax
break
drawhist(ybin, xbin)
def plot(self,onsets,ofunc,wplot,oplots,nplot=False):
import Gnuplot, Gnuplot.funcutils
import aubio.txtfile
import os.path
import numarray
from aubio.onsetcompare import onset_roc
x1,y1,y1p = [],[],[]
oplot = []
if self.params.onsetmode in ('mkl','kl'): ofunc[0:10] = [0] * 10
self.lenofunc = len(ofunc)
self.maxofunc = max(ofunc)
# onset detection function
downtime = numarray.arange(len(ofunc))*self.params.step
oplot.append(Gnuplot.Data(downtime,ofunc,with='lines',title=self.params.onsetmode))
# detected onsets
if not nplot:
for i in onsets:
x1.append(i[0]*self.params.step)
y1.append(self.maxofunc)
y1p.append(-self.maxofunc)
#x1 = numarray.array(onsets)*self.params.step
#y1 = self.maxofunc*numarray.ones(len(onsets))
if x1:
oplot.append(Gnuplot.Data(x1,y1,with='impulses'))
wplot.append(Gnuplot.Data(x1,y1p,with='impulses'))
def abs_fft(self, points=None, zoom=None,write = 'off'): """ Fourier transforms the timesignal; points is the number of points to transform, if more points given than data points the rest is zero padded absfft(points=4096) """ realdata = numarray.array(self.the_result.y[0]) imdata = numarray.array(self.the_result.y[1]) data = realdata + 1j*imdata fftdata = self.rearrange(numarray.fft.fft(data, points)) absfft = numarray.sqrt(fftdata.real**2 + fftdata.imag**2) # create our x axis n = fftdata.size() self.the_result.x = numarray.arange(n)*(self.sampling_rate/n)-(self.sampling_rate/2.0) self.the_result.y[0] = absfft self.the_result.y[1] = numarray.zeros(n) if write == 'on': return self else: if zoom is None: return self.the_result else: center, width = zoom return self.zoom(self.the_result, center, width)
def createFileArr(filename, ngroups, ntables, nrows):
# First, create the groups
# Open a file in "w"rite mode
fileh = openFile(filename, mode="w", title="PyTables Stress Test")
for k in range(ngroups):
# Create the group
group = fileh.createGroup("/", 'group%04d'% k, "Group %d" % k)
fileh.close()
# Now, create the arrays
rowswritten = 0
arr = numarray.arange(nrows)
for k in range(ngroups):
fileh = openFile(filename, mode="a", rootUEP='group%04d'% k)
# Get the group
group = fileh.root
for j in range(ntables):
# Create the array
group = fileh.createArray("/", 'array%04d'% j,
arr, "Array %d" % j)
fileh.close()
return (ngroups*ntables*nrows, 4)
def __init__(self, name, naxis=1, crval=0, cdelt=1,
ctype = "none", crpix = 1):
if ( type(name) == type(" ") ):
#
# These values are being set by hand,
#
self.name = name
self.crval = crval
self.cdelt = cdelt
self.naxis = naxis
self.ctype = '%s' % ctype
self.crpix = crpix
else:
#
# Assume this is a primary header and grab the keyword data,
# but check anyways
#
if (name.__doc__ != "FITS header class."):
print "This is not a FITS header."
return
axis = "%s" % naxis
self.name = keywordVal(name, "CTYPE"+axis, "axis %s" % naxis)
self.crval = keywordVal(name, "CRVAL"+axis, 0)
self.cdelt = keywordVal(name, "CDELT"+axis, 1)
self.naxis = keywordVal(name, "NAXIS" + axis)
self.ctype = self.name
self.crpix = keywordVal(name, "CRPIX"+axis, 1)
self.array = ((numarray.arange(self.naxis) + 1 - self.crpix)*self.cdelt
+ self.crval)
def points(self,npoints):
"""
compute arrays of npoints equally spaced
intermediate points along the great circle.
input parameter npoints is the number of points
to compute.
Returns lons, lats (lists with longitudes and latitudes
of intermediate points in degrees).
For example npoints=10 will return arrays lons,lats of 10
equally spaced points along the great circle.
"""
# can't do it if endpoints of great circle are antipodal, since
# route is undefined.
if self.antipodal:
raise ValueError,'cannot compute intermediate points on a great circle whose endpoints are antipodal'
d = self.distance
delta = 1.0/(npoints-1)
f = delta*N.arange(npoints)
lat1 = self.lat1
lat2 = self.lat2
lon1 = self.lon1
lon2 = self.lon2
A = N.sin((1-f)*d)/math.sin(d)
B = N.sin(f*d)/math.sin(d)
x = A*math.cos(lat1)*math.cos(lon1)+B*math.cos(lat2)*math.cos(lon2)
y = A*math.cos(lat1)*math.sin(lon1)+B*math.cos(lat2)*math.sin(lon2)
z = A*math.sin(lat1) +B*math.sin(lat2)
lats=N.arctan2(z,N.sqrt(x**2+y**2))
lons=N.arctan2(y,x)
lons = map(math.degrees,lons.tolist())
lats = map(math.degrees,lats.tolist())
return lons,lats
def makeplotsub(c):
plot(c.f24, c.fap4 * 1.67, 'bo', markersize=4)
#plot(c.f24,c.fap4,'ro',markersize=4)
#plot(c.f24,c.fap3,'go',markersize=2)
#plot(c.f24,c.fap2,'yo',markersize=2)
#plot(c.f24,c.fap1,'co',markersize=2)
x = N.arange(1., max(c.f24), 100.)
y = x
plot(x, y, 'k-')
y2 = y + N.log10(2.)
plot(x, y2, 'k--')
y2 = y + N.log10(.5)
plot(x, y2, 'k--')
y = 3. * x
#plot(x,y,'k-')
y = 4. * x
#plot(x,y,'k-')
y = 5. * x
#plot(x,y,'k-')
ax = gca()
text(.1,
.8,
c.prefix,
horizontalalignment='left',
verticalalignment='center',
transform=ax.transAxes)
#xlabel('Mopex F(24)',fontsize=fsize)
#ylabel('Ap Flux ',fontsize=fsize)
axis([20., 4000., 20., 4000.])
ax.set_xscale('log')
ax.set_yscale('log')
def plotStar(star, time='orbit', color='k', alpha=1.0):
# Choices for time are
# 'orbit' = plot the whole orbit
# 'obs' = duration of observation
# 'extend' = duration of observation plus out to 2017.5
orb = star.orbit
# Determine time steps
x = star.getArrayAllEpochs('x')
y = star.getArrayAllEpochs('y')
if (time == 'orbit'):
t = na.arange(orb.t0+0.01, orb.t0+orb.p+0.11, orb.p/200.0, type=na.Float)
if (time == 'obs'):
idx = ( na.where(x != -1000) )[0]
t = na.arange(math.floor(star.years[idx[0]]),
math.ceil(star.years[idx[-1]]),
0.1, type=na.Float)
if (time == 'extend'):
idx = ( na.where(x != -1000) )[0]
t = na.arange(math.floor(star.years[idx[0]]),
2017.5,
0.1, type=na.Float)
(r, v, a) = orb.kep2xyz(t, mass=mass, dist=dist)
pp = pylab.plot(r[:,0], r[:,1], color=color, alpha=alpha)
# To plot no line and just the data points:
#pp = pylab.plot([], [],color=color)
##
## Now plot the actual data points
##
# Load from points files
if yrlyPts:
# Just take the points from 'r' array spaced about a year apart
roundT = array([int(round(t[qq])) for qq in range(len(t))])
firstT = roundT[0]
tPts = [roundT.searchsorted(firstT+zz+1) for zz in range(roundT[-1]-firstT)]
c = pylab.scatter(r[tPts,0], r[tPts,1], 20.0, color, marker='o', faceted=False)
else:
# Get the actual data
c = pylab.scatter(x, y, 20.0, color, marker='o', faceted=False)
c.set_alpha(alpha)
return pp
def main():
a = numarray.arange(100)
r = get_readonly_p(a)
print r
r = get_readonly_c(a)
print r
def set_angle_bins(cls, cthmin=None, cthdelta=None):
"""Convenience method for initializing cosTheta bin edge vector."""
if cthmin is not None: cls.cthmin = cthmin
if cthdelta is not None: cls.cthdelta = cthdelta
cls.angle_bins = int((1.0 - cls.cthmin) / cls.cthdelta)
cls.angle_bin_edges = num.arange(cls.angle_bins +
1) * cls.cthdelta + cls.cthmin
def plot_rspgenIntegral(self, energy, inclination, phi=0, nsamp=2000):
rmin = 1e-2
rmax = 30.
npts = 20
rstep = num.log(rmax / rmin) / (npts - 1)
radii = rmin * num.exp(rstep * num.arange(npts))
self._setPsf(energy, inclination, phi)
seps = []
srcDir = SkyDir(180, 0)
for i in range(nsamp):
appDir = self.psf.appDir(energy, srcDir, self.scZAxis,
self.scXAxis)
seps.append(appDir.difference(srcDir) * 180. / num.pi)
seps.sort()
fraction = num.arange(nsamp, type=num.Float) / nsamp
disp = plot.scatter(seps,
fraction,
xlog=1,
xname='ROI radius',
yname='enclosed Psf fraction',
pointRep='Line',
color='red')
disp.setTitle("%s: %i MeV, %.1f deg" %
(self.irfs, energy, inclination))
npred = []
resids = []
for radius in radii:
npred.append(
self.psf.angularIntegral(energy, inclination, phi, radius))
resids.append(
num.abs(
(self._interpolate(seps, fraction, radius) - npred[-1]) /
npred[-1]))
plot.scatter(radii, npred, pointRep='Line', oplot=1)
residplot = plot.scatter(radii,
resids,
'ROI radius',
yname='abs(sim - npred)/npred',
xlog=1,
ylog=1)
# Npred = Interpolator(radii, npred)
ks_prob = ks2(npred, seps)
plot.hline(0)
residplot.setTitle("%s: %i MeV, %.1f deg\n ks prob=%.2e" %
(self.irfs, energy, inclination, ks_prob[1]))
return energy, inclination, ks_prob[1]
def sortwindex(
x
): #sort array, return sorted array and array containing indices for unsorted array
nx = len(x)
y = N.arange(0, nx, 1) #index of array x
y = N.take(y, N.argsort(x)) #sort y according to x rankings
xs = N.take(x, N.argsort(x))
return xs, y #xs=sorted array, y=indices in unsorted array
def main():
a = numarray.arange(100)
r = get_readonly_p(a)
print r
r = get_readonly_c(a)
print r
def points(self,npoints):
"""
compute arrays of npoints equally spaced
intermediate points along the great circle.
input parameter npoints is the number of points
to compute.
Returns lons, lats (lists with longitudes and latitudes
of intermediate points in degrees).
For example npoints=10 will return arrays lons,lats of 10
equally spaced points along the great circle.
"""
# must ask for at least 2 points.
if npoints <= 1:
raise ValueError,'npoints must be greater than 1'
elif npoints == 2:
return [math.degrees(self.lon1),math.degrees(self.lon2)],[math.degrees(self.lat1),math.degrees(self.lat2)]
# can't do it if endpoints are antipodal, since
# route is undefined.
if self.antipodal:
raise ValueError,'cannot compute intermediate points on a great circle whose endpoints are antipodal'
d = self.gcarclen
delta = 1.0/(npoints-1)
f = delta*N.arange(npoints) # f=0 is point 1, f=1 is point 2.
incdist = self.distance/(npoints-1)
lat1 = self.lat1
lat2 = self.lat2
lon1 = self.lon1
lon2 = self.lon2
# perfect sphere, use great circle formula
if self.f == 0.:
A = N.sin((1-f)*d)/math.sin(d)
B = N.sin(f*d)/math.sin(d)
x = A*math.cos(lat1)*math.cos(lon1)+B*math.cos(lat2)*math.cos(lon2)
y = A*math.cos(lat1)*math.sin(lon1)+B*math.cos(lat2)*math.sin(lon2)
z = A*math.sin(lat1) +B*math.sin(lat2)
lats=N.arctan2(z,N.sqrt(x**2+y**2))
lons=N.arctan2(y,x)
lons = map(math.degrees,lons.tolist())
lats = map(math.degrees,lats.tolist())
# use ellipsoid formulas
else:
latpt = self.lat1
lonpt = self.lon1
azimuth = self.azimuth12
lons = [math.degrees(lonpt)]
lats = [math.degrees(latpt)]
for n in range(npoints-2):
latptnew,lonptnew,alpha21=vinc_pt(self.f,self.a,latpt,lonpt,azimuth,incdist)
d,azimuth,a21=vinc_dist(self.f,self.a,latptnew,lonptnew,lat2,lon2)
lats.append(math.degrees(latptnew))
lons.append(math.degrees(lonptnew))
latpt = latptnew; lonpt = lonptnew
lons.append(math.degrees(self.lon2))
lats.append(math.degrees(self.lat2))
return lons,lats
def RandomAccessCheck(nupdate, n, table):
temp = N.array([1], N.UInt64)
for i in range(nupdate):
temp = (temp << 1) ^ ((temp.astype(N.Int64) < 0)[0] and POLY or 0)
table[temp & (n - 1)] ^= temp
errors = n - (table - N.arange(n, type=N.UInt64) == 0).sum()
ferr = float(errors) / float(n) * 100.0
return errors, ferr, ferr <= 0.01
def main(*args):
resolution = 0.1
fwhm = 0.5
# get some (random) data, i.e. a stick-spectrum
x = num.arange(-50, 50+resolution, resolution)
y = num.zeros(x.shape, num.Float)
for i in range(10):
y[ran.randint(0, len(y)-1)] = ran.random()
# create lineshape objects
g = ls.GaussProfile(num.arange(-10*fwhm, 10*fwhm+resolution, resolution), 1.0)
l = ls.LorentzProfile(num.arange(-10*fwhm, 10*fwhm+resolution, resolution), 1.0)
v = ls.VoigtProfile(num.arange(-10*fwhm, 10*fwhm+resolution, resolution), (0.6, 0.6))
# convolute data with profile
res_g = Convolve.convolve(y, g(), Convolve.SAME)
res_l = Convolve.convolve(y, l(), Convolve.SAME)
res_v = Convolve.convolve(y, v(), Convolve.SAME)
for i in zip(x, y, res_g, res_l, res_v):
print "%12.6f %12.6f %12.6f %12.6f %12.6f" % i
def plotPoly(xData, yData, coeff):
m = len(coeff)
x1 = min(xData)
x2 = max(xData)
dx = (x2 - x1) / 20.0
x = arange(x1, x2 + dx / 10.0, dx)
y = zeros((len(x))) * 1.0
for i in range(m):
y = y + coeff[i] * x**i
xyPlot(xData, yData, 'no', x, y, 'ln')
def set_energy_bins(cls, logemin=None, logemax=None, logedelta=None):
"""Convenience method for initializing energy bin edge vector."""
if logemin is not None: cls.logemin = logemin
if logemax is not None: cls.logemax = logemax
if logedelta is not None: cls.logedelta = logedelta
cls.energy_bins = int((cls.logemax - cls.logemin) / cls.logedelta)
cls.energy_bin_edges = (
num.arange(cls.energy_bins + 1) * cls.logedelta +
cls.logemin).tolist()
def getSineWave(freq, samplecount=320):
""" Generate a sine wave of frequency 'freq'. The samples are
generated at 8khz. The first 'samplecount' samples will be
returned.
"""
from numarray import sin, arange
from math import pi
sine = sin(arange(HZ)/(HZ/freq) * 2.0 * pi)
sine = sine[:samplecount]
return sine
def set_energy_bins(cls,logemin=None,logemax=None,logedelta=None):
if logemin is None: logemin = cls.logemin
if logemax is None: logemax = cls.logemax
if logedelta is None: logedelta = cls.logedelta
cls.energy_bins = int((logemax-logemin)/logedelta)
cls.energy_bin_edges = (num.arange(cls.energy_bins+1)*logedelta+logemin).tolist()
print 'Energy Bins ', cls.energy_bin_edges
def create_households_for_estimation(agent_set, dbcon):
estimation_set = HouseholdSet(in_base=dbcon, in_storage_type="mysql", in_place="households_for_estimation")
agent_set.unload_nonderived_attributes()
agent_set.load_dataset(attributes="*")
estimation_set.load_dataset(agent_set.get_nonderived_attribute_names())
for attr in agent_set.get_attribute_names():
agent_set.set[attr].set_data(concatenate((estimation_set.set[attr].get_data(), agent_set.set[attr].get_data())))
agent_set.update_id_mapping()
agent_set.update_size()
return (agent_set, arange(estimation_set.size()))
def plotPoly(xData,yData,coeff):
m = len(coeff)
x1 = min(xData)
x2 = max(xData)
dx = (x2 - x1)/20.0
x = arange(x1,x2 + dx/10.0,dx)
y = zeros((len(x)))*1.0
for i in range(m):
y = y + coeff[i]*x**i
xyPlot(xData,yData,'no',x,y,'ln')
def Kcorr(self):#calculate K_u(z) (Blanton et al 2003) for each cluster
self.kcorr=N.zeros(len(self.z),'f')
self.dL=N.zeros(len(self.z),'f')
z=N.arange(0.,1.2,.1)
#kc=N.array([0.,0.,.05,.05,.1,.15,.2,.225,.25,.3,.35,.35],'f')#Ku(z)
kc=N.array([0.,0.,.025,.05,.07,.1,.14,.16,.2,.25,.25,.3],'f')#Kg(z)
r=self.z/.01
for i in range(len(self.z)):
self.kcorr[i]=kc[int(r[i])]+(r[i]-int(r[i]))*(kc[int(r[i]+1)]-kc[int(r[i])])
self.dL[i] = my.dL(self.z[i],h100)
def getSineWave(freq, samplecount=320):
""" Generate a sine wave of frequency 'freq'. The samples are
generated at 8khz. The first 'samplecount' samples will be
returned.
"""
from numarray import sin, arange
from math import pi
sine = sin(arange(HZ)/(HZ/freq) * 2.0 * pi)
sine = sine[:samplecount]
return sine
def testMul(self):
""" test multiplication """
a = Table(['a','b','c','d'],[2,3,4,5],range(2*3*4*5))
b = Table(['c','b','e'],[4,3,6],range(12*6))
c = Table(['a','b','c','d','e'],[2,3,4,5,6],range(2*3*4*5*6))
acpt = a.cpt[...,na.NewAxis]
bcpt = b.cpt[...,na.NewAxis,na.NewAxis]
bcpt = na.transpose(bcpt,[3,1,0,4,2])
resab = acpt*bcpt
ab = a*b
cc = c*c
bb = b*b
assert (ab == Table(['a','b','c','d','e'],[2,3,4,5,6],resab) and \
cc == Table(['a','b','c','d','e'],[2,3,4,5,6],na.arange(2*3*4*5*6)**2) and \
bb == Table(['c','b','e'],[4,3,6],na.arange(12*6)**2)), \
" Multiplication does not work"
def testEq(self):
a = Table(['a','b'],[2,3],range(6),'Float32')
b = Table(['a','b'],[2,3],range(6),'Float32')
c = Table(['a'],[6],range(6),'Float32')
d = na.arange(6,shape=(2,3))
e = Table(['b','a'],[3,2], na.transpose(a.cpt))
assert(a == b and \
not a == c and \
a == d and \
a == e and e == a), \
"__eq__ does not work"
def run(self):
x = self.args[0]*self.args[0]
for i in range(10000):
SIZE = 10**int(random.random()*3)
a = numarray.arange(1, SIZE*SIZE+1, shape=(SIZE,SIZE))
a.transpose()
b = a.copy()
a = a * x
assert numarray.logical_and.reduce(numarray.ravel((a / x) == b))
# if (i % 100 == 0):
print self.getName(),
sys.stdout.flush()
def testInit(self):
a = self.a
b = self.b
assert(a.g == 0.0 and \
na.allclose(a.h, na.zeros(3)) and \
na.allclose(a.K, na.zeros(shape=(3,3)))), \
" Error with standard initialization "
assert(b.g == 2.0 and \
na.allclose(b.h, na.array([1,2,3], type='Float32')) and \
na.allclose(b.K, na.arange(9,shape=(3,3), type='Float32'))), \
" Error with standard initialization with parameter setting"
def fig6(m,w): # Metallicity distribution
""" fig6(t,w) -- differential metallicity distribution """
mmin,mmax,mstep = -2.5,1.0,0.2
mmin = mmin-mstep
mbins = numarray.arange(mmin,mmax,mstep)
indices = numarray.searchsorted(mbins,m)
weight = numarray.zeros(len(mbins))*0.
for i in range(len(m)):
weight[indices[i]] += w[i]
pylab.bar(mbins[1:],weight[:-1],width=mstep,edgecolor=None)
pylab.xlabel("[Fe/H]")
pylab.ylabel("N")
return mbins[1:],weight[:-1]
def MaskToList(mask):
"Turn a mask into a list of rows to delete"
mask = numarray.array( mask, numarray.Bool)
mask = numarray.logical_not(mask)
xr=numarray.arange( len(mask) )[mask]
xr=numarray.array(xr)
res=pybnfits.LongVector(len(xr))
for i,v in enumerate(xr):
res[i]=v+1
return res
def fig7b(t,w): # Age distribution
""" fig7b(t,w) -- differential age distribution """
tmin,tmax,tstep = 0.0,14.5,0.5
tmin = tmin-tstep
tbins = numarray.arange(tmin,tmax,tstep)
t_gyr=10.**t/1.e9
indices = numarray.searchsorted(tbins,t_gyr)
weight = numarray.zeros(len(tbins))*0.
for i in range(len(w)):
weight[indices[i]] += w[i]
pylab.bar(tbins[1:],weight[:-1],width=tstep,edgecolor=None)
pylab.xlabel("Age (Gyr)")
pylab.ylabel("N")
return tbins[1:],weight[:-1]
def JCMTArrayToHDU(ar,
pixsize_arcsecs,
dz):
"Convert array to table HDU"
dx=numarray.zeros( ar.shape, numarray.Float64)
dy=numarray.zeros( ar.shape, numarray.Float64)
for j in range(ar.shape[1]):
dx[:,j]= numarray.arange(-ar.shape[0]/2.0 * pixsize_arcsecs,
ar.shape[0]/2.0 * pixsize_arcsecs, pixsize_arcsecs)
for i in range(ar.shape[0]):
dy[i,:]= numarray.arange(-ar.shape[1]/2.0 * pixsize_arcsecs,
ar.shape[1]/2.0 * pixsize_arcsecs, pixsize_arcsecs)
# Convert to radians
dx *= math.pi / 180 / 3600
dy *= math.pi / 180 / 3600
coldefs = [
pyfits.Column ( "DX", "E", "radians",
array=dx.flat ),
pyfits.Column ( "DY", "E", "radians",
array=dy.flat),
pyfits.Column ( "fnu", "E", "Jy",
array=ar.flat ),
pyfits.Column ( "UFNU", "E", "Jy",
array=numarray.ones(len(dx.flat))),
pyfits.Column ( "TIME", "E", "d",
array=numarray.arange(len(dx.flat)))
]
nh = pyfits.new_table( coldefs )
nh.header.update("dz", dz )
return nh